Academic Articles & Research Papers

Environmental memory in macrophages: a PRISMA-guided systematic review and the macrophage environmental memory systems framework.

Functional saturation of Earth's habitable domains: constraints on land systems and potential in marine environments.

One health perspectives on pharmaceutical and clinical effluents driving multidrug resistance in aquatic ecosystems: a comprehensive review.

Practical Recommendations for Supporting a Systems Biology Cyberinfrastructure

Projects in the life sciences continue to increase in complexity as they scale to answer deeper and more diverse questions. They employ technologies that generate increasingly large ‘omic’ datasets and research teams regularly include exper...

Emerging natural hemp seed proteins and their functions for nutraceutical applications

With changing dietary habits and increasing awareness of the nutraceutical role of dietary foods, the demand for natural plant proteins and interest in non-traditional protein sources in the food industry are increasing. Industrial hemp, be...

Rhizospheric Microbes and Nanoparticles Synergize to Enhance Plant Immune Responses

ABSTRACT Sustainable crop production increasingly requires innovative strategies that can enhance plant resilience while reducing dependence on synthetic agrochemicals. Recent advances in nanotechnology and rhizosphere microbiome research h...

Nanotechnology and Cancer

The biological picture of cancer is rapidly advancing from models built from phenomenological descriptions to network models derived from systems biology, which can capture the evolving pathophysiology of the disease at the molecular level....

Genome-scale consequences of cofactor balancing in engineered pentose utilization pathways in Saccharomyces cerevisiae.

Biofuels derived from lignocellulosic biomass offer promising alternative renewable energy sources for transportation fuels. Significant effort has been made to engineer Saccharomyces cerevisiae to efficiently ferment pentose sugars such as...

Multi-trait evaluation of almond germplasm using the MGIDI method: optimizing yield and nutritional quality

Abstract Almond (Prunus dulcis) is a nutrient-rich tree nut of global economic and dietary importance, with Iran serving as a key center of genetic diversity. This study evaluated 78 Iranian almond genotypes for pomological traits and major...

Correlating single-molecule rupture mechanics with cell population adhesion by yeast display

Here, we present a method based on yeast surface display that allows for direct comparison between population-level cell adhesion strength and single-molecule receptor-ligand rupture mechanics. We developed a high-throughput yeast adhesion ...

Feasibility study for interactive reporting of network meta-analysis: experiences from the development of the MetaInsight COVID-19 app for stakeholder exploration, re-analysis and sensitivity analysis from living systematic reviews

Abstract Background Network meta-analysis (NMA) has been increasingly adopted worldwide by Cochrane reviews, guideline developers and decision-making bodies to identify optimal treatment choices. However, NMA results are often produced stat...

Barriers and facilitators of retention in care after cervical cancer screening: patients’ and healthcare providers’ perspectives

Abstract Background Cervical cancer continues to threaten women’s health, especially in low-resource settings. Regular follow-up after screening and treatment is an effective strategy for monitoring treatment outcomes. Consequently, underst...

Medical Informatics and Bioinformatics

In the last 50 years, computational applications have been developed to aid clinicians and researchers alike in the broad field of Biomedicine. Adopted early in the evolution of the field, the term medical informatics has been applied to th...

Specific egg yolk immunoglobulin as a promising non-antibiotic biotherapeutic product against Acinetobacter baumannii pneumonia infection

Abstract Acinetobacter baumannii is a serious health threat with a high mortality rate. We have already reported prophylactic effects of IgYs raised against OmpA and Omp34 as well as against inactivated whole-cell (IWC) of A. baumannii in a...

Transgenerational inheritance of ethanol preference is caused by maternal NPF repression

Rapid or even anticipatory adaptation to environmental conditions can provide a decisive fitness advantage to an organism. The memory of recurring conditions could also benefit future generations; however, neuronally-encoded behavior isn’t ...

The evolution of molecular biology into systems biology

Natural Language Processing and Systems Biology

Single-cell spatial metabolomics with cell-type specific protein profiling for tissue systems biology

Abstract Metabolic reprogramming in cancer and immune cells occurs to support their increasing energy needs in biological tissues. Here we propose Single Cell Spatially resolved Metabolic (scSpaMet) framework for joint protein-metabolite pr...

Deep learning for computational biology

Technological advances in genomics and imaging have led to an explosion of molecular and cellular profiling data from large numbers of samples. This rapid increase in biological data dimension and acquisition rate is challenging conventiona...

Machine learning in bioinformatics

This article reviews machine learning methods for bioinformatics. It presents modelling methods, such as supervised classification, clustering and probabilistic graphical models for knowledge discovery, as well as deterministic and stochast...